Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 287 of 333
Found at i:94865576 original size:29 final size:29
Alignment explanation
Indices: 94865536--94865635 Score: 130
Period size: 29 Copynumber: 3.5 Consensus size: 29
94865526 AATGTGACTA
*
94865536 GGCCTAACGGGCCATATAAATGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* *
94865565 GGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAATGGGCCATATAAATGTGATTTG
* * *
94865594 GGCCTAATGGGCCATATGAATATGA-ATG
1 GGCCTAATGGGCCATATAAATGTGATTTG
*
94865622 GGCTTAATGGGCCA
1 GGCCTAATGGGCCA
94865636 GATACAGGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
28 15 0.24
29 47 0.76
ACGTcount: A:0.27, C:0.17, G:0.30, T:0.26
Consensus pattern (29 bp):
GGCCTAATGGGCCATATAAATGTGATTTG
Found at i:94865632 original size:28 final size:29
Alignment explanation
Indices: 94865521--94865635 Score: 128
Period size: 29 Copynumber: 4.0 Consensus size: 29
94865511 GTGAGCATGA
* * *
94865521 ATATGAATGTGA-CTAGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
94865549 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
94865578 ATAT-ACAGGTGATTTGGGCCTAATGGGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* * *
94865607 ATATGAATATGA-ATGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
94865635 A
1 A
94865636 GATACAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.27
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:94865641 original size:57 final size:58
Alignment explanation
Indices: 94865536--94865644 Score: 157
Period size: 57 Copynumber: 1.9 Consensus size: 58
94865526 AATGTGACTA
* * *
94865536 GGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATTTG
1 GGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGTGATTTG
* * *
94865594 GGCCTAATGGGCCATATGAATATGA-ATGGGCTTAATGGGCCAGATACAGGT
1 GGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGT
94865645 ATGTGAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
57 23 0.51
58 22 0.49
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.26
Consensus pattern (58 bp):
GGCCTAACGGGCCATATAAATATGATATGGGCCTAATGGGCCAGATACAGGTGATTTG
Found at i:94875211 original size:23 final size:23
Alignment explanation
Indices: 94875181--94875230 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
94875171 CTCGATTAAG
94875181 GGACGATATACATATGTACGAAT
1 GGACGATATACATATGTACGAAT
* *
94875204 GGACGATATGCATGTGTACGAAT
1 GGACGATATACATATGTACGAAT
94875227 GGAC
1 GGAC
94875231 TCTGTTATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.34, C:0.14, G:0.28, T:0.24
Consensus pattern (23 bp):
GGACGATATACATATGTACGAAT
Found at i:94886335 original size:129 final size:128
Alignment explanation
Indices: 94886191--94886434 Score: 357
Period size: 129 Copynumber: 1.9 Consensus size: 128
94886181 CACCCTCATT
* * * *
94886191 TACCCCAAACCCATTTACCCCTATTTTACTCCC-CCATTTATTTTCCCCCTAAATTTTACTCCCC
1 TACCCCAAACCCATTTACCCCCATTTTAC-CCCTCCATTTAATTTCCCCCAAAATTTTAAT-CCC
* *
94886255 CAAAAACCTTCAAAAC-TTTTTATTTTCCCCGAAAACTTTTACTCCCCTCCCATCCTACCCCTAT
64 CAAAAACCCTCAAAACTTTTTTATTTTCCCCCAAAACTTTTACT-CCCTCCCATCCTACCCCTAT
94886319 C
128 C
* * *
94886320 TACCCCAAATCCATTTCCCCCCATTTTACCCCTCCATTTAATTTCCTCCAAAATTTTAATCCCCA
1 TACCCCAAACCCATTTACCCCCATTTTACCCCTCCATTTAATTTCCCCCAAAATTTTAATCCCCA
*
94886385 AAAACCCTCAAAACTTTTTTCTTTTCCCCCAAAACTTTTACTCCCTCCCA
66 AAAACCCTCAAAACTTTTTTATTTTCCCCCAAAACTTTTACTCCCTCCCA
94886435 CTTTCCCCCT
Statistics
Matches: 103, Mismatches: 10, Indels: 5
0.87 0.08 0.04
Matches are distributed among these distances:
128 29 0.28
129 74 0.72
ACGTcount: A:0.26, C:0.40, G:0.00, T:0.34
Consensus pattern (128 bp):
TACCCCAAACCCATTTACCCCCATTTTACCCCTCCATTTAATTTCCCCCAAAATTTTAATCCCCA
AAAACCCTCAAAACTTTTTTATTTTCCCCCAAAACTTTTACTCCCTCCCATCCTACCCCTATC
Found at i:94886451 original size:30 final size:30
Alignment explanation
Indices: 94886407--94886465 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
94886397 ACTTTTTTCT
94886407 TTTCCCCCAAAACTTTTACT-CCCTCCCAC
1 TTTCCCCCAAAACTTTTACTCCCCTCCCAC
*
94886436 TTTCCCCCTAAAACTTTTATTCCCCTCCCA
1 TTTCCCCC-AAAACTTTTACTCCCCTCCCA
94886466 TCCCACCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 8 0.30
30 11 0.41
31 8 0.30
ACGTcount: A:0.20, C:0.46, G:0.00, T:0.34
Consensus pattern (30 bp):
TTTCCCCCAAAACTTTTACTCCCCTCCCAC
Found at i:94888400 original size:16 final size:16
Alignment explanation
Indices: 94888381--94888441 Score: 50
Period size: 16 Copynumber: 3.4 Consensus size: 16
94888371 TAACCAAAGA
94888381 GAAAGATAATACCTAG
1 GAAAGATAATACCTAG
*
94888397 GAAAGAATCAAGATAACCAAAG
1 GAAAG-AT--A-AT-ACC-TAG
94888419 AGAAAGATAATACCTAG
1 -GAAAGATAATACCTAG
94888436 GAAAGA
1 GAAAGA
94888442 ATCCACCTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 14
0.69 0.04 0.27
Matches are distributed among these distances:
16 11 0.31
17 4 0.11
18 3 0.08
19 3 0.08
20 3 0.08
21 3 0.08
22 4 0.11
23 5 0.14
ACGTcount: A:0.56, C:0.11, G:0.20, T:0.13
Consensus pattern (16 bp):
GAAAGATAATACCTAG
Found at i:94888411 original size:39 final size:39
Alignment explanation
Indices: 94888367--94888444 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
94888357 AAAATAATAG
94888367 AAGATAACCAAAGAGAAAGATAATACCTAGGAAAGAATC
1 AAGATAACCAAAGAGAAAGATAATACCTAGGAAAGAATC
94888406 AAGATAACCAAAGAGAAAGATAATACCTAGGAAAGAATC
1 AAGATAACCAAAGAGAAAGATAATACCTAGGAAAGAATC
94888445 CACCTAGACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.56, C:0.13, G:0.18, T:0.13
Consensus pattern (39 bp):
AAGATAACCAAAGAGAAAGATAATACCTAGGAAAGAATC
Found at i:94890130 original size:15 final size:15
Alignment explanation
Indices: 94890112--94890140 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
94890102 CAAATCTCGA
94890112 CAAAAAAAAGGGAAT
1 CAAAAAAAAGGGAAT
94890127 CAAAAAAAAGGGAA
1 CAAAAAAAAGGGAA
94890141 CAATTTTCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.07, G:0.21, T:0.03
Consensus pattern (15 bp):
CAAAAAAAAGGGAAT
Found at i:94892176 original size:48 final size:48
Alignment explanation
Indices: 94891912--94892177 Score: 208
Period size: 48 Copynumber: 5.7 Consensus size: 48
94891902 ATTGTGAGCT
*
94891912 AGTGTAAGA-CATGTTTGGGACAT-GCATCGGCCACATTATGAGA---GTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CAC--TATGAGAGGTGTC
** *
94891958 AGTGTAAGACCATGTCTGGGACATGGCATCTACA-T-TGAGACGAGAG-C
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGA-G-GTGTC
* * * * *
94892005 TAGAGTAAGA-CATGTCTGAGACAT-TCATCGGC-CTCGTGA-A-GTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGGCATCGGCACT-ATGAGAGGT--GTC
*
94892052 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG--CTATGAGATGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGAGGTGTC
*
94892096 AGTGTAAGACCATGTCTGGGACATGGAATCGGCACATAT-AGAGGTGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-TATGAGAGGTGTC
*
94892144 AGTGTAAGACCATGTCTGGGACATGGCGTCGGCA
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCA
94892178 TTCTACCCCA
Statistics
Matches: 181, Mismatches: 18, Indels: 40
0.76 0.08 0.17
Matches are distributed among these distances:
43 5 0.03
44 16 0.09
45 17 0.09
46 51 0.28
47 31 0.17
48 58 0.32
49 3 0.02
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACTATGAGAGGTGTC
Found at i:94892478 original size:47 final size:47
Alignment explanation
Indices: 94892409--94892503 Score: 181
Period size: 47 Copynumber: 2.0 Consensus size: 47
94892399 TTGATGAATG
94892409 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
1 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
*
94892456 GTAGAGTTGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
1 GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
94892503 G
1 G
94892504 CTTACTCCCT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.26, C:0.08, G:0.18, T:0.47
Consensus pattern (47 bp):
GTAGAGATGTTGTTATATTTATTTGCTTGCAACTTACTAAGATTTAT
Found at i:94896077 original size:22 final size:22
Alignment explanation
Indices: 94896036--94896077 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
94896026 GTTGATATGG
**
94896036 TCACACGGGCGTGTTGCCCTTC
1 TCACACGGGCGTGTACCCCTTC
*
94896058 TCACACGGGTGTGTACCCCT
1 TCACACGGGCGTGTACCCCT
94896078 AGGTCACGTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.12, C:0.36, G:0.26, T:0.26
Consensus pattern (22 bp):
TCACACGGGCGTGTACCCCTTC
Found at i:94926566 original size:16 final size:16
Alignment explanation
Indices: 94926547--94926600 Score: 53
Period size: 16 Copynumber: 3.6 Consensus size: 16
94926537 GATTGATTTC
94926547 TGATATGAATGTTAAA
1 TGATATGAATGTTAAA
*
94926563 TGATATTG-AT-TT--C
1 TGATA-TGAATGTTAAA
*
94926576 TGACATGAATGTTAAA
1 TGATATGAATGTTAAA
94926592 TGATATGAA
1 TGATATGAA
94926601 ATATTTGTAT
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
12 2 0.07
13 6 0.21
14 2 0.07
15 2 0.07
16 15 0.52
17 2 0.07
ACGTcount: A:0.39, C:0.04, G:0.19, T:0.39
Consensus pattern (16 bp):
TGATATGAATGTTAAA
Found at i:94926572 original size:29 final size:29
Alignment explanation
Indices: 94926538--94926597 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
94926528 ATTGAATATG
*
94926538 ATTGATTTCTGATATGAATGTTAAATGAT
1 ATTGATTTCTGACATGAATGTTAAATGAT
94926567 ATTGATTTCTGACATGAATGTTAAATGAT
1 ATTGATTTCTGACATGAATGTTAAATGAT
94926596 AT
1 AT
94926598 GAAATATTTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (29 bp):
ATTGATTTCTGACATGAATGTTAAATGAT
Found at i:94928772 original size:29 final size:31
Alignment explanation
Indices: 94928718--94928779 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
94928708 ATTTTAAAAT
* *
94928718 TATATATGAATTTTGATTTAATGTGTAATTA
1 TATATATAAATTTTAATTTAATGTGTAATTA
94928749 TATATATAAATTTTAATTT-A-GTGTAATTA
1 TATATATAAATTTTAATTTAATGTGTAATTA
94928778 TA
1 TA
94928780 CACGTGAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.38
30 1 0.03
31 17 0.59
ACGTcount: A:0.39, C:0.00, G:0.10, T:0.52
Consensus pattern (31 bp):
TATATATAAATTTTAATTTAATGTGTAATTA
Found at i:94929045 original size:29 final size:31
Alignment explanation
Indices: 94928996--94929054 Score: 70
Period size: 29 Copynumber: 2.0 Consensus size: 31
94928986 ATATAAAATT
94928996 ACATAAAACCAAAGTTGATA-T-ATATTTAC
1 ACATAAAACCAAAGTTGATATTGATATTTAC
* *
94929025 ACATTAAACCATAA-TTTATATTGATATTTA
1 ACATAAAACCA-AAGTTGATATTGATATTTA
94929055 TCCCCGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
29 15 0.60
30 3 0.12
31 7 0.28
ACGTcount: A:0.46, C:0.12, G:0.05, T:0.37
Consensus pattern (31 bp):
ACATAAAACCAAAGTTGATATTGATATTTAC
Found at i:94933182 original size:13 final size:13
Alignment explanation
Indices: 94933152--94933197 Score: 51
Period size: 14 Copynumber: 3.5 Consensus size: 13
94933142 ACGATAAATT
*
94933152 ATTAATATAAAAT
1 ATTAATATAAAAA
94933165 A-TAAT-TGAAAAA
1 ATTAATAT-AAAAA
94933177 ATTAATATAAATAA
1 ATTAATATAAA-AA
94933191 ATTAATA
1 ATTAATA
94933198 AATTGTGATA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
11 1 0.04
12 9 0.32
13 8 0.29
14 10 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (13 bp):
ATTAATATAAAAA
Found at i:94933523 original size:25 final size:28
Alignment explanation
Indices: 94933463--94933523 Score: 65
Period size: 25 Copynumber: 2.3 Consensus size: 28
94933453 TTATTCTATA
94933463 AATATTTTTATAAAAATTGTTATGTGTT
1 AATATTTTTATAAAAATTGTTATGTGTT
* * * *
94933491 TATCTTTTTA-AAATA-T-TTATTTGTT
1 AATATTTTTATAAAAATTGTTATGTGTT
94933516 AATATTTT
1 AATATTTT
94933524 ATTATATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
25 14 0.52
26 1 0.04
27 4 0.15
28 8 0.30
ACGTcount: A:0.33, C:0.02, G:0.07, T:0.59
Consensus pattern (28 bp):
AATATTTTTATAAAAATTGTTATGTGTT
Found at i:94935926 original size:133 final size:130
Alignment explanation
Indices: 94935653--94936000 Score: 350
Period size: 133 Copynumber: 2.7 Consensus size: 130
94935643 TATCGTCATC
* * *
94935653 AATTATTAATAAAATGTGTAACAATCAAACAAGTTGTTGCTAAACGTTAAAATATTATCAGCAAC
1 AATTATTAATAAAATCTGTAACAA--AAACAAGTTGTTGTTAAACGTTAAAATATTAACA--AAC
* * ** * * **
94935718 ATTAAAATATTG-T-TG-AATAAATTAATTTTATTCTTATTCATCGCAACGACATGATTTGTCAT
62 CTTAAAATATCGTTATGTAATTTATTAATTTTATTCTTATTAATAGCAACGACACAATTTGTCAT
94935780 TGCG
127 TGCG
* * * * *
94935784 AATTTTTAATAAAATTTATAACAAGACACAAGTTATTGTTAAACGTTAAAATATTAACAATAACC
1 AATTATTAATAAAATCTGTAACAA-AAACAAGTTGTTGTTAAACGTTAAAATATTAAC-A-AACC
* *
94935849 TTAAAATATCGTTATGTAATTTATTTATTTT-TTACTTATTAATAGCAATGACACAATTTGTCAT
63 TTAAAATATCGTTATGTAATTTATTAATTTTATT-CTTATTAATAGCAACGACACAATTTGTCAT
*
94935913 TGTG
127 TGCG
* * *
94935917 AATTATTAATAAAATCTGTAACGACAAAATAAATTGTTGTTAAACGTT--AGTATTAAC-AACCT
1 AATTATTAATAAAATCTGTAAC-A-AAAACAAGTTGTTGTTAAACGTTAAAATATTAACAAACCT
*
94935979 TAAAATATCGTTATGTATTTTA
64 TAAAATATCGTTATGTAATTTA
94936001 ATTTTCTATT
Statistics
Matches: 181, Mismatches: 29, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
129 26 0.14
130 42 0.23
131 23 0.13
132 12 0.07
133 58 0.32
134 19 0.10
135 1 0.01
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (130 bp):
AATTATTAATAAAATCTGTAACAAAAACAAGTTGTTGTTAAACGTTAAAATATTAACAAACCTTA
AAATATCGTTATGTAATTTATTAATTTTATTCTTATTAATAGCAACGACACAATTTGTCATTGCG
Found at i:94936054 original size:126 final size:129
Alignment explanation
Indices: 94935845--94936076 Score: 290
Period size: 126 Copynumber: 1.8 Consensus size: 129
94935835 TATTAACAAT
* * ** *
94935845 AACCTTAAAATATCGTTATGTAATTTATTTATTTTTTACTTATTAATAGCAATGACACAATTTGT
1 AACCTTAAAATATCGTTATGTAATTTATTAATTTTCTACTTATTAATAGCAACAACACAATTTAT
* *
94935910 CATTGTGAATTATTAATAAAATCTGTAACGACAAAATAAATTGTTGTTAAACGTTAGTATTAAC
66 CATTGAGAAATATTAATAAAATCTGTAACGACAAAATAAATTGTTGTTAAACGTTAGTATTAAC
* * * *
94935974 AACCTTAAAATATCGTTATGT-A-TT-TTAATTTTCTATTTATTGATTGCAACAACACAGTTTAT
1 AACCTTAAAATATCGTTATGTAATTTATTAATTTTCTACTTATTAATAGCAACAACACAATTTAT
* * * * * *
94936036 TATTGAGAAATCTTAATAAAGTTTGTAATGGCAAAATAAAT
66 CATTGAGAAATATTAATAAAATCTGTAACGACAAAATAAAT
94936077 GGTTAAATAT
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
126 62 0.72
127 2 0.02
128 1 0.01
129 21 0.24
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (129 bp):
AACCTTAAAATATCGTTATGTAATTTATTAATTTTCTACTTATTAATAGCAACAACACAATTTAT
CATTGAGAAATATTAATAAAATCTGTAACGACAAAATAAATTGTTGTTAAACGTTAGTATTAAC
Found at i:94940203 original size:14 final size:15
Alignment explanation
Indices: 94940184--94940217 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
94940174 ATAAAAATAA
*
94940184 GAAAAG-AAATAAAT
1 GAAAAGTAAATAAAC
94940198 GAAAAGTAAATAAAC
1 GAAAAGTAAATAAAC
94940213 GAAAA
1 GAAAA
94940218 ACAAGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.71, C:0.03, G:0.15, T:0.12
Consensus pattern (15 bp):
GAAAAGTAAATAAAC
Found at i:94945472 original size:15 final size:14
Alignment explanation
Indices: 94945430--94945472 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
94945420 TCCATGTTCG
94945430 TATATCATAATTTCA
1 TATATCAT-ATTTCA
*
94945445 TACATTCATATTTCA
1 TATA-TCATATTTCA
94945460 TATATCATCATTT
1 TATATCAT-ATTT
94945473 TCATGTACTT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
14 4 0.17
15 16 0.67
16 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (14 bp):
TATATCATATTTCA
Found at i:94945764 original size:57 final size:57
Alignment explanation
Indices: 94945670--94945826 Score: 181
Period size: 57 Copynumber: 2.8 Consensus size: 57
94945660 TATCATATAA
* * * ** * *
94945670 CAGGATTACTTGTCCAAGCTAAATCCTGTTTCCAACATATGCTCATAAGAGCTTAAT
1 CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCTCAGAAGAGCTCAAT
*
94945727 CAGGATCACTAGTCCAGGCTAAATCCT-TTCTGTAACATATGCTCAGAAGAGCTCAAT
1 CAGGATTACTAGTCCAGGCTAAATCCTATT-TGTAACATATGCTCAGAAGAGCTCAAT
* * * * *
94945784 TAGGATTACCAGTCCTGGCTAAATTCTAATTGTAACATATGCT
1 CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCT
94945827 TGAGAGGGAT
Statistics
Matches: 85, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
56 2 0.02
57 82 0.96
58 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (57 bp):
CAGGATTACTAGTCCAGGCTAAATCCTATTTGTAACATATGCTCAGAAGAGCTCAAT
Found at i:94955732 original size:43 final size:42
Alignment explanation
Indices: 94955676--94955836 Score: 137
Period size: 43 Copynumber: 3.8 Consensus size: 42
94955666 TCTATATGTT
*
94955676 TTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGA
1 TTAT-GTGTAAGACCACGTCTGGGACGTTGGCATC-ATATGTGA
* * * * * * *
94955720 TTATGTGAAAGACTATGTCTGGGACATTGGCAACATATTTTA
1 TTATGTGTAAGACCACGTCTGGGACGTTGGCATCATATGTGA
* **
94955762 TT-CGTGTAAGACCTTGTCTGGGACAG-TGGCATCAATATGTGA
1 TTATGTGTAAGACCACGTCTGGGAC-GTTGGCATC-ATATGTGA
*** *
94955804 TTGCATGTAAGACCACGTTTGGGACGTTGGCAT
1 TTATGTGTAAGACCACGTCTGGGACGTTGGCAT
94955837 TATACGATAT
Statistics
Matches: 93, Mismatches: 20, Indels: 9
0.76 0.16 0.07
Matches are distributed among these distances:
41 24 0.26
42 17 0.18
43 48 0.52
44 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (42 bp):
TTATGTGTAAGACCACGTCTGGGACGTTGGCATCATATGTGA
Found at i:94955780 original size:41 final size:42
Alignment explanation
Indices: 94955674--94955792 Score: 109
Period size: 41 Copynumber: 2.9 Consensus size: 42
94955664 TTTCTATATG
** * * *
94955674 TTTTA-TCGTGTAAGACCACGTCTAGGACGTTGGCATCGATA
1 TTTTATTCGTGTAAGACCTTGTCTGGGACATTGGCAACGATA
* * * *
94955715 TGTGATTATGTGAAAGA-CTATGTCTGGGACATTGGCAAC-ATA
1 TTTTATT-CGTGTAAGACCT-TGTCTGGGACATTGGCAACGATA
*
94955757 TTTTATTCGTGTAAGACCTTGTCTGGGACAGTGGCA
1 TTTTATTCGTGTAAGACCTTGTCTGGGACATTGGCA
94955793 TCAATATGTG
Statistics
Matches: 60, Mismatches: 14, Indels: 8
0.73 0.17 0.10
Matches are distributed among these distances:
41 26 0.43
42 12 0.20
43 22 0.37
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (42 bp):
TTTTATTCGTGTAAGACCTTGTCTGGGACATTGGCAACGATA
Found at i:94955827 original size:84 final size:82
Alignment explanation
Indices: 94955674--94955835 Score: 193
Period size: 84 Copynumber: 1.9 Consensus size: 82
94955664 TTTCTATATG
* * *
94955674 TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCGATATGTGATTATGTGAAAGACTATGTC
1 TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTATGT-AAAGACCACGTC
94955739 TGGGACATTGGCAACATA
65 TGGGACATTGGCAACATA
** *
94955757 TTTTATTCGTGTAAGACCTTGTCTGGGACAG-TGGCATCAATATGTGATTGCATGT-AAGACCAC
1 TTTTA-TCGTGTAAGACCACGTCTAGGAC-GTTGGCATCAATATGTGATT--ATGTAAAGACCAC
* *
94955820 GTTTGGGACGTTGGCA
62 GTCTGGGACATTGGCA
94955836 TTATACGATA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
83 5 0.07
84 57 0.85
85 1 0.01
86 4 0.06
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (82 bp):
TTTTATCGTGTAAGACCACGTCTAGGACGTTGGCATCAATATGTGATTATGTAAAGACCACGTCT
GGGACATTGGCAACATA
Found at i:94956870 original size:16 final size:16
Alignment explanation
Indices: 94956849--94956886 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
94956839 ATTTGTCTTA
*
94956849 GTAATGGGGTAAAATG
1 GTAATGGAGTAAAATG
94956865 GTAATGGAGTAAAATG
1 GTAATGGAGTAAAATG
94956881 GTAATG
1 GTAATG
94956887 ATATATATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.34, T:0.26
Consensus pattern (16 bp):
GTAATGGAGTAAAATG
Found at i:94958163 original size:39 final size:38
Alignment explanation
Indices: 94958096--94958230 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 38
94958086 ACCAATATGG
* *
94958096 CACCCAGTGCCTCATCGGATAGTTCGAAGTAATAGTTGA
1 CACCCAGTGCCTCATCGGCTAG-CCGAAGTAATAGTTGA
* * *
94958135 CACCCAGTGTCTCATCGGCCTAGCCGAAGT-ACAGTTGG
1 CACCCAGTGCCTCATCGG-CTAGCCGAAGTAATAGTTGA
* * * * *
94958173 TACCCAGTACCTCATCGAATCTATCCGAAGAAATA-TAGTGA
1 CACCCAGTGCCTCATCG--GCTAGCCGAAGTAATAGT--TGA
*
94958214 CACCCAGTGTCTCATCG
1 CACCCAGTGCCTCATCG
94958231 ACTCGAGGTC
Statistics
Matches: 74, Mismatches: 16, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
38 20 0.27
39 33 0.45
40 5 0.07
41 16 0.22
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (38 bp):
CACCCAGTGCCTCATCGGCTAGCCGAAGTAATAGTTGA
Found at i:94958436 original size:10 final size:10
Alignment explanation
Indices: 94958421--94958445 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
94958411 TAATTCACTT
94958421 ATTTAATTCA
1 ATTTAATTCA
94958431 ATTTAATTCA
1 ATTTAATTCA
94958441 ATTTA
1 ATTTA
94958446 CATCACTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTAATTCA
Found at i:94959209 original size:23 final size:24
Alignment explanation
Indices: 94959183--94959227 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
94959173 TGTAACTTTC
*
94959183 TTTCCTTTTTTT-CTTCTTTTACG
1 TTTCATTTTTTTACTTCTTTTACG
*
94959206 TTTCATTTTTTTATTTCTTTTA
1 TTTCATTTTTTTACTTCTTTTA
94959228 TGTTATATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (24 bp):
TTTCATTTTTTTACTTCTTTTACG
Found at i:94967207 original size:20 final size:21
Alignment explanation
Indices: 94967182--94967220 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
94967172 TCCTTAAAAC
94967182 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
94967202 AGGGCAACACGCCCGTGTG
1 AGGGCAACACGCCCGTGTG
94967221 ACCAACTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.31, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:94970491 original size:55 final size:55
Alignment explanation
Indices: 94970300--94970466 Score: 334
Period size: 55 Copynumber: 3.0 Consensus size: 55
94970290 AGATCCAAGG
94970300 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
1 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
94970355 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
1 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
94970410 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
1 TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
94970465 TT
1 TT
94970467 AGTACAGCTT
Statistics
Matches: 112, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 112 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (55 bp):
TTTACGTAGCGATTTTGGAAGAAACTGCAAGAAGCTCTAGGTACAAAGTTGAGTT
Found at i:94972898 original size:34 final size:34
Alignment explanation
Indices: 94972815--94972917 Score: 134
Period size: 34 Copynumber: 3.0 Consensus size: 34
94972805 GAATACATTC
* * * * *
94972815 TGGGCCTAAGCCCATATCAGTAACGGTAACAGTC
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
94972849 TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
1 TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
* *
94972883 TGGGCCTTAGCCCATTTCAATAATAGTAGTCAGTA
1 TGGGCCTTAGCCCATTTCAGTAACAGTAG-CAGTA
94972918 CAGTAACCAT
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
34 56 0.92
35 5 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.26
Consensus pattern (34 bp):
TGGGCCTTAGCCCATTTCAGTAACAGTAGCAGTA
Found at i:94972941 original size:18 final size:18
Alignment explanation
Indices: 94972918--94972958 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
94972908 GTAGTCAGTA
94972918 CAGTAACCA-TAATCAATG
1 CAGTAA-CAGTAATCAATG
*
94972936 CAGTAACAGTAATCAGTG
1 CAGTAACAGTAATCAATG
94972954 CAGTA
1 CAGTA
94972959 TGCAAGCAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 2 0.10
18 19 0.90
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (18 bp):
CAGTAACAGTAATCAATG
Found at i:94973247 original size:23 final size:24
Alignment explanation
Indices: 94973221--94973268 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 24
94973211 CCATGCAATA
*
94973221 CAACATA-ATATTATACATGG-ATG
1 CAACATACATATAAT-CATGGCATG
94973244 CAACATACATATAATCATGGCATG
1 CAACATACATATAATCATGGCATG
94973268 C
1 C
94973269 TCAACACAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (24 bp):
CAACATACATATAATCATGGCATG
Found at i:94973335 original size:27 final size:27
Alignment explanation
Indices: 94973302--94973492 Score: 214
Period size: 27 Copynumber: 7.3 Consensus size: 27
94973292 GAAAAAATCT
* * *
94973302 GTCATTTTACCTTATCGGGGTATTACA
1 GTCATTTTACCCTATAGGGGTATTTCA
* * * * *
94973329 GTTATTTTACCCTACAAGAGTATTTCG
1 GTCATTTTACCCTATAGGGGTATTTCA
*
94973356 GTCATTCTACCCTATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
*
94973383 GTCATTTTACCCTATAGGGGTATTTTA
1 GTCATTTTACCCTATAGGGGTATTTCA
*
94973410 GTCATTTTACCCTATAAGGGTATTTCTA
1 GTCATTTTACCCTATAGGGGTATTTC-A
94973438 -TCA-TTT---C-ATAGGGGTATTTCA
1 GTCATTTTACCCTATAGGGGTATTTCA
* *
94973459 GTCATTTTACCCTATAAGGGTATTTCT
1 GTCATTTTACCCTATAGGGGTATTTCA
94973486 GTCATTT
1 GTCATTT
94973493 CATCACATAA
Statistics
Matches: 136, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
21 1 0.01
22 15 0.11
23 4 0.03
26 4 0.03
27 111 0.82
28 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATAGGGGTATTTCA
Found at i:94973468 original size:49 final size:49
Alignment explanation
Indices: 94973348--94973495 Score: 190
Period size: 49 Copynumber: 2.9 Consensus size: 49
94973338 CCCTACAAGA
* * *
94973348 GTATTTCGGTCATTCTACCCTATAGGGGTATTTC-AGTCATTTTACCCTATAGGG
1 GTATTTCAGTCATTTTACCCTATAAGGGTATTTCTA-TCA-TTT---C-ATAGGG
*
94973402 GTATTTTAGTCATTTTACCCTATAAGGGTATTTCTATCATTTCATAGGG
1 GTATTTCAGTCATTTTACCCTATAAGGGTATTTCTATCATTTCATAGGG
*
94973451 GTATTTCAGTCATTTTACCCTATAAGGGTATTTCTGTCATTTCAT
1 GTATTTCAGTCATTTTACCCTATAAGGGTATTTCTATCATTTCAT
94973496 CACATAAGGG
Statistics
Matches: 87, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
49 49 0.56
50 1 0.01
53 3 0.03
54 33 0.38
55 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.17, T:0.43
Consensus pattern (49 bp):
GTATTTCAGTCATTTTACCCTATAAGGGTATTTCTATCATTTCATAGGG
Found at i:94973502 original size:27 final size:26
Alignment explanation
Indices: 94973444--94973532 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
94973434 TCTATCATTT
* *
94973444 CATAGGGGTATTTCAGTCATTTTA-CC
1 CATAAGGGTATTTC-GTCATTTTATCA
*
94973470 CTATAAGGGTATTTCTGTCATTTCATCA
1 C-ATAAGGGTATTTC-GTCATTTTATCA
* **
94973498 CATAAGGGAAAATCGTCATTTTATCA
1 CATAAGGGTATTTCGTCATTTTATCA
94973524 CATAAGGGT
1 CATAAGGGT
94973533 TTAGGTACGC
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
26 20 0.38
27 30 0.58
28 2 0.04
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (26 bp):
CATAAGGGTATTTCGTCATTTTATCA
Found at i:94976087 original size:9 final size:9
Alignment explanation
Indices: 94976075--94976123 Score: 52
Period size: 9 Copynumber: 5.7 Consensus size: 9
94976065 TATTTCATAC
94976075 AAGCTTACT
1 AAGCTTACT
94976084 AAGCTT--T
1 AAGCTTACT
94976091 ATAGCTTACT
1 A-AGCTTACT
94976101 AAGCCTTA-T
1 AAG-CTTACT
94976110 -AGCTTACT
1 AAGCTTACT
94976118 AAGCTT
1 AAGCTT
94976124 TATAACTTAC
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
7 6 0.18
8 8 0.24
9 14 0.41
10 6 0.18
ACGTcount: A:0.31, C:0.20, G:0.12, T:0.37
Consensus pattern (9 bp):
AAGCTTACT
Found at i:94976140 original size:17 final size:17
Alignment explanation
Indices: 94976076--94976134 Score: 100
Period size: 17 Copynumber: 3.5 Consensus size: 17
94976066 ATTTCATACA
94976076 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
*
94976093 AGCTTACTAAGCCTTAT
1 AGCTTACTAAGCTTTAT
94976110 AGCTTACTAAGCTTTAT
1 AGCTTACTAAGCTTTAT
*
94976127 AACTTACT
1 AGCTTACT
94976135 TTGCTTATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 39 1.00
ACGTcount: A:0.31, C:0.20, G:0.10, T:0.39
Consensus pattern (17 bp):
AGCTTACTAAGCTTTAT
Found at i:94977536 original size:24 final size:25
Alignment explanation
Indices: 94977487--94977536 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
94977477 ACCCTTCTCA
* *
94977487 TCTCTTCACTTCTCTCTCATTTTTC
1 TCTCTTCACTTCCCTCTCATTGTTC
94977512 TCTCTTCA-TTCCCT-TCCATTGTTC
1 TCTCTTCACTTCCCTCT-CATTGTTC
94977536 T
1 T
94977537 TCATTTTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 1 0.05
24 13 0.59
25 8 0.36
ACGTcount: A:0.08, C:0.36, G:0.02, T:0.54
Consensus pattern (25 bp):
TCTCTTCACTTCCCTCTCATTGTTC
Found at i:94982104 original size:3 final size:3
Alignment explanation
Indices: 94982044--94982085 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
94982034 CATTCCTCTT
94982044 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
94982086 GTTTTTACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:94983735 original size:6 final size:6
Alignment explanation
Indices: 94983724--94983821 Score: 144
Period size: 6 Copynumber: 16.5 Consensus size: 6
94983714 TCCATTTGTC
*
94983724 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TCTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
* * * *
94983772 TTTATT TCTATT TTTATT TTTATT TTTCTT TTTCTT TTTCTT TTT-TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
94983819 TTT
1 TTT
94983822 GAACTATATT
Statistics
Matches: 87, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
5 5 0.06
6 82 0.94
ACGTcount: A:0.12, C:0.05, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTATT
Found at i:94992963 original size:39 final size:39
Alignment explanation
Indices: 94992920--94992994 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
94992910 ACACGGCTGA
*
94992920 GACACACACCCGTGTCTCTACCCGTGTGTACAAAAACAG
1 GACACACACCCGTGTCTCTACCCGTGTGGACAAAAACAG
*
94992959 GACACACACCCGTGTGTCTACCCGTGTGGACAAAAA
1 GACACACACCCGTGTCTCTACCCGTGTGGACAAAAA
94992995 TAGGCTATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.31, C:0.32, G:0.20, T:0.17
Consensus pattern (39 bp):
GACACACACCCGTGTCTCTACCCGTGTGGACAAAAACAG
Found at i:95003898 original size:33 final size:33
Alignment explanation
Indices: 95003858--95004008 Score: 194
Period size: 33 Copynumber: 4.5 Consensus size: 33
95003848 TACTCTCTGT
95003858 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* * *
95003891 TTAGTGTGCTAGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
*
95003924 TTGGTGTGCTGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
* ** * * *
95003957 TTGGTGTATTGGAGGGATTGGCTCGTGTGAGCA
1 TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
95003990 TTTGGTGTGTTTGGTTGGA
1 -TTGGTGTG-TTGGTTGGA
95004009 CTGATGATGT
Statistics
Matches: 101, Mismatches: 15, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
33 87 0.86
34 7 0.07
35 7 0.07
ACGTcount: A:0.15, C:0.09, G:0.35, T:0.40
Consensus pattern (33 bp):
TTGGTGTGTTGGTTGGATTAGCTCTTATGAGCA
Found at i:95007025 original size:3 final size:3
Alignment explanation
Indices: 95007017--95007042 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
95007007 TGAGTGTTTT
95007017 TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TT
95007043 TTTTTCAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:95007478 original size:22 final size:22
Alignment explanation
Indices: 95007453--95007494 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
95007443 TTTTTATCCT
95007453 TTAA-AATATATAAAATTATAAA
1 TTAATAATA-ATAAAATTATAAA
*
95007475 TTAATAATAGTAAAATTATA
1 TTAATAATAATAAAATTATA
95007495 CTTTTATCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 14 0.78
23 4 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (22 bp):
TTAATAATAATAAAATTATAAA
Found at i:95015177 original size:39 final size:40
Alignment explanation
Indices: 95015099--95015187 Score: 128
Period size: 39 Copynumber: 2.2 Consensus size: 40
95015089 TAAAATTATC
* *
95015099 TTTAATACAATAAAATATTTATTATATTTATTTGTA-TTT
1 TTTAATATAATAAAATATTTATTATATTTATTGGTATTTT
*
95015138 TTTAATATAATAAAATATTTGTTATATTTA-TGGTAATTTT
1 TTTAATATAATAAAATATTTATTATATTTATTGGT-ATTTT
95015178 TTTAATATAA
1 TTTAATATAA
95015188 ATATTTTTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
38 3 0.07
39 29 0.64
40 13 0.29
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (40 bp):
TTTAATATAATAAAATATTTATTATATTTATTGGTATTTT
Found at i:95018083 original size:16 final size:16
Alignment explanation
Indices: 95018059--95018089 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95018049 CCTTTCCCAT
95018059 AAAAAAAAAAGAAAAG
1 AAAAAAAAAAGAAAAG
*
95018075 AAAAGAAAAAGAAAA
1 AAAAAAAAAAGAAAA
95018090 CAGCTTCCTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAGAAAAG
Found at i:95018709 original size:27 final size:28
Alignment explanation
Indices: 95018656--95018710 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
95018646 AAAATTCAAA
* *
95018656 TAAACATATAAAAATACATAAATATTTT
1 TAAACATATAAAAATAAATAAACATTTT
* *
95018684 TAAA-ATATAATAATAAATATACATTTT
1 TAAACATATAAAAATAAATAAACATTTT
95018711 ATATTAATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAACATATAAAAATAAATAAACATTTT
Found at i:95024824 original size:13 final size:13
Alignment explanation
Indices: 95024806--95024835 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
95024796 CTATAATAAC
*
95024806 ATAATTACTAAAT
1 ATAATTACGAAAT
95024819 ATAATTACGAAAT
1 ATAATTACGAAAT
95024832 ATAA
1 ATAA
95024836 GAGTCCAGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.57, C:0.07, G:0.03, T:0.33
Consensus pattern (13 bp):
ATAATTACGAAAT
Found at i:95027368 original size:21 final size:22
Alignment explanation
Indices: 95027340--95027387 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
95027330 TATTCATCAA
95027340 TTATAT-AT-TTTTA-TGA-TT
1 TTATATAATATTTTATTGATTT
95027358 TTATATAATATTTTATTGATTT
1 TTATATAATATTTTATTGATTT
95027380 TTATATAA
1 TTATATAA
95027388 AATACTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 6 0.23
19 2 0.08
20 5 0.19
21 3 0.12
22 10 0.38
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.62
Consensus pattern (22 bp):
TTATATAATATTTTATTGATTT
Found at i:95028359 original size:15 final size:16
Alignment explanation
Indices: 95028339--95028368 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
95028329 AAAAATTAAT
95028339 TAATA-TAATTAACTC
1 TAATATTAATTAACTC
95028354 TAATATTAATTAACT
1 TAATATTAATTAACT
95028369 GATAATTAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.47, C:0.10, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATATTAATTAACTC
Found at i:95032402 original size:16 final size:15
Alignment explanation
Indices: 95032383--95032414 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
95032373 TCATTAAACC
95032383 TAAAAATACAAAAAAA
1 TAAAAATA-AAAAAAA
95032399 TAAAAATAAAAAAAA
1 TAAAAATAAAAAAAA
95032414 T
1 T
95032415 CCAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.16
Consensus pattern (15 bp):
TAAAAATAAAAAAAA
Found at i:95033268 original size:20 final size:20
Alignment explanation
Indices: 95033243--95033448 Score: 72
Period size: 21 Copynumber: 9.7 Consensus size: 20
95033233 GTTGGATTTT
95033243 GAATCAAGTT-AAAAAATAAA
1 GAATCAA-TTCAAAAAATAAA
* *
95033263 GAATCAATTCAAACAATAAT
1 GAATCAATTCAAAAAATAAA
* * *
95033283 GAATCGATTTAAAACAACAAA
1 GAATCAATTCAAAA-AATAAA
* ** *
95033304 CAATTGATTCAAAGAAGTAAA
1 GAATCAATTCAAA-AAATAAA
* *
95033325 GAATCAATTTAAAACAACAATCA
1 GAATCAATTCAAAA-AATAA--A
* **
95033348 TGAATCAATTTAAAGAAGCAAA
1 -GAATCAATTCAAA-AAATAAA
* * * *
95033370 TAATCGATTTAAAGCAACAATAAT
1 GAATC-AATTCAA--AA-AATAAA
* *
95033394 GAATCGATTCAAATAAGTAAA
1 GAATCAATTCAAA-AAATAAA
* *
95033415 GAATCAATTTCAAACAACAAA
1 GAATCAA-TTCAAAAAATAAA
*
95033436 TAATCAATTCAAA
1 GAATCAATTCAAA
95033449 GAAGAAAAGA
Statistics
Matches: 136, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
19 2 0.01
20 33 0.24
21 55 0.40
22 14 0.10
23 6 0.04
24 25 0.18
25 1 0.01
ACGTcount: A:0.55, C:0.13, G:0.09, T:0.23
Consensus pattern (20 bp):
GAATCAATTCAAAAAATAAA
Found at i:95033353 original size:24 final size:23
Alignment explanation
Indices: 95033325--95033444 Score: 76
Period size: 21 Copynumber: 5.4 Consensus size: 23
95033315 AAGAAGTAAA
95033325 GAATCAATTTAAAACAACAATCAT
1 GAATCAATTTAAAACAACAAT-AT
*
95033349 GAATCAATTTAAAGA-AGCAA-AT
1 GAATCAATTTAAA-ACAACAATAT
* *
95033371 -AATCGATTTAAAGCAACAATAAT
1 GAATCAATTTAAAACAACAAT-AT
* * **
95033394 GAATCGATTCAAATA-AGTAA-A-
1 GAATCAATTTAAA-ACAACAATAT
*
95033415 GAATCAATTTCAAACAACAA-AT
1 GAATCAATTTAAAACAACAATAT
95033437 -AATCAATT
1 GAATCAATT
95033445 CAAAGAAGAA
Statistics
Matches: 75, Mismatches: 13, Indels: 19
0.70 0.12 0.18
Matches are distributed among these distances:
20 1 0.01
21 37 0.49
22 3 0.04
23 2 0.03
24 31 0.41
25 1 0.01
ACGTcount: A:0.53, C:0.13, G:0.08, T:0.25
Consensus pattern (23 bp):
GAATCAATTTAAAACAACAATAT
Found at i:95033365 original size:45 final size:43
Alignment explanation
Indices: 95033243--95033478 Score: 223
Period size: 45 Copynumber: 5.5 Consensus size: 43
95033233 GTTGGATTTT
* * * *
95033243 GAATCAAGTTAAAA-AATAAA-GAATCAATTCAAACAA-TAAT
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
* * **
95033283 GAATCGATTTAAAACAACAAA-CAATTGATTCAAAGAAGTAAA
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
* *
95033325 GAATCAATTTAAAACAACAATCATGAATCAATTTAAAGAAGCAAA
1 GAATCAATTTAAAACAACAA--ATGAATCAATTCAAAGAAGTAAA
* * * * *
95033370 TAATCGATTTAAAGCAACAATAATGAATCGATTCAAATAAGTAAA
1 GAATCAATTTAAAACAAC-A-AATGAATCAATTCAAAGAAGTAAA
* *
95033415 GAATCAATTTCAAACAACAAAT-AATCAATTCAAAGAAGAAAA
1 GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
*
95033457 GAAT-AGATTTAAAATAACAAAT
1 GAATCA-ATTTAAAACAACAAAT
95033479 TTAGTAACAA
Statistics
Matches: 158, Mismatches: 30, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
40 12 0.08
41 18 0.11
42 57 0.36
43 3 0.02
44 2 0.01
45 64 0.41
46 1 0.01
47 1 0.01
ACGTcount: A:0.56, C:0.11, G:0.09, T:0.23
Consensus pattern (43 bp):
GAATCAATTTAAAACAACAAATGAATCAATTCAAAGAAGTAAA
Found at i:95033379 original size:21 final size:21
Alignment explanation
Indices: 95033284--95033469 Score: 74
Period size: 21 Copynumber: 8.6 Consensus size: 21
95033274 AACAATAATG
* *
95033284 AATCGATTTAAA-ACAACAAAC
1 AATCGATTTAAAGA-AGCAAAT
* * * *
95033305 AATTGATTCAAAGAAGTAAAG
1 AATCGATTTAAAGAAGCAAAT
* *
95033326 AATCAATTTAAA-ACAACAATCAT
1 AATCGATTTAAAGA-AGCAA--AT
*
95033349 GAATCAATTTAAAGAAGCAAAT
1 -AATCGATTTAAAGAAGCAAAT
95033371 AATCGATTTAAAGCAA-CAATAAT
1 AATCGATTTAAAG-AAGC-A-AAT
* * * *
95033394 GAATCGATTCAAATAAGTAAAG
1 -AATCGATTTAAAGAAGCAAAT
* *
95033416 AATCAATTTCAAACAA-CAAAT
1 AATCGATTT-AAAGAAGCAAAT
* * * *
95033437 AATCAATTCAAAGAAGAAAAG
1 AATCGATTTAAAGAAGCAAAT
*
95033458 AATAGATTTAAA
1 AATCGATTTAAA
95033470 ATAACAAATT
Statistics
Matches: 123, Mismatches: 29, Indels: 26
0.69 0.16 0.15
Matches are distributed among these distances:
20 6 0.05
21 69 0.56
22 13 0.11
23 7 0.06
24 27 0.22
25 1 0.01
ACGTcount: A:0.55, C:0.12, G:0.10, T:0.23
Consensus pattern (21 bp):
AATCGATTTAAAGAAGCAAAT
Found at i:95033388 original size:87 final size:87
Alignment explanation
Indices: 95033243--95033476 Score: 262
Period size: 87 Copynumber: 2.7 Consensus size: 87
95033233 GTTGGATTTT
* * * * * *
95033243 GAATCAAGTTAAAA-AATAAAGAATCAATTCAAACAA-TAATGAATCGATTTAAAACAAC-A-AA
1 GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAATAA
*
95033304 -CAATTGATTCAAAGAAGTAAA
66 TCAATCGATTCAAAGAAGTAAA
* * * *
95033325 GAATCAATTTAAAACAACAATCATGAATCAATTTAAAGAAGCAAATAATCGATTTAAAGCAACAA
1 GAATCAATTTAAAACAACAA--AT-AATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAA
* *
95033390 TAATGAATCGATTCAAATAAGTAAA
63 TAATCAATCGATTCAAAGAAGTAAA
* * *
95033415 GAATCAATTTCAAACAACAAATAATCAATTCAAAGAAGAAAAGAATAGATTTAAAATAACAA
1 GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAA
95033477 ATTTAGTAAC
Statistics
Matches: 125, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
82 13 0.10
83 4 0.03
85 1 0.01
86 13 0.10
87 52 0.42
88 3 0.02
89 2 0.02
90 37 0.30
ACGTcount: A:0.56, C:0.12, G:0.09, T:0.23
Consensus pattern (87 bp):
GAATCAATTTAAAACAACAAATAATCAATTCAAAGAAGAAAAGAATCGATTTAAAACAACAATAA
TCAATCGATTCAAAGAAGTAAA
Found at i:95034911 original size:19 final size:18
Alignment explanation
Indices: 95034891--95034935 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 18
95034881 AAAATCTTTA
95034891 AAATTATTAAAAATATAT
1 AAATTATTAAAAATATAT
*
95034909 AAATT-TTATAAA-A-AT
1 AAATTATTAAAAATATAT
*
95034924 AAATTTTTAAAA
1 AAATTATTAAAA
95034936 TTTTTAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 7 0.29
16 6 0.25
17 6 0.25
18 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
AAATTATTAAAAATATAT
Found at i:95034934 original size:33 final size:32
Alignment explanation
Indices: 95034891--95034961 Score: 81
Period size: 33 Copynumber: 2.2 Consensus size: 32
95034881 AAAATCTTTA
95034891 AAATTATTAAAA-ATATATAAATTTTATAAAAAT
1 AAATTATTAAAATATATA-AAATTTTA-AAAAAT
* * *
95034924 AAATTTTTAAAATTTTTAAAATTTTAAAAAAT
1 AAATTATTAAAATATATAAAATTTTAAAAAAT
*
95034956 TAATTA
1 AAATTA
95034962 AATGCTAACA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
32 10 0.31
33 19 0.59
34 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (32 bp):
AAATTATTAAAATATATAAAATTTTAAAAAAT
Found at i:95034939 original size:8 final size:8
Alignment explanation
Indices: 95034868--95034952 Score: 55
Period size: 9 Copynumber: 10.1 Consensus size: 8
95034858 TCAAAAATTT
*
95034868 ATTTTTAA
1 ATTTTAAA
*
95034876 ATTTAAAA
1 ATTTTAAA
95034884 ATCTTTAAA
1 AT-TTTAAA
95034893 ATTATTAAA
1 ATT-TTAAA
* *
95034902 AATATATAA
1 ATTTTA-AA
95034911 ATTTTATAA
1 ATTTTA-AA
**
95034920 A-AATAAA
1 ATTTTAAA
*
95034927 TTTTTAAA
1 ATTTTAAA
95034935 ATTTTTAAA
1 A-TTTTAAA
95034944 ATTTTAAA
1 ATTTTAAA
95034952 A
1 A
95034953 AATTAATTAA
Statistics
Matches: 59, Mismatches: 13, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
7 2 0.03
8 25 0.42
9 32 0.54
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (8 bp):
ATTTTAAA
Found at i:95040836 original size:2 final size:2
Alignment explanation
Indices: 95040823--95040852 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
95040813 GTAACTTCAA
*
95040823 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
95040853 TAGTATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:95044266 original size:47 final size:46
Alignment explanation
Indices: 95044198--95044358 Score: 179
Period size: 47 Copynumber: 3.5 Consensus size: 46
95044188 TGTGTGTGCT
* **
95044198 AGTGTAAGGCA-GTCTGGGACATGCATCGGCCACATTATG-AGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTA-AGCC
* *
95044243 AGTGTAAGACCATGTTTGGGACATGCATCGGCCTCAAGATGTAAGCC
1 AGTGTAAGA-CATGTCTGGGACATGCATCGGCCACAAGATGTAAGCC
* * *
95044290 AGTGTAAGACATGTCTGGGACATGCATCAGCCATGAA-ATGT--GTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCA-CAAGATGTAAGCC
95044334 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
95044359 GCAACGGCAC
Statistics
Matches: 101, Mismatches: 10, Indels: 10
0.83 0.08 0.08
Matches are distributed among these distances:
44 11 0.11
45 23 0.23
46 27 0.27
47 39 0.39
48 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACAAGATGTAAGCC
Found at i:95048299 original size:13 final size:13
Alignment explanation
Indices: 95048281--95048318 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
95048271 TCCCAAACGT
95048281 CGAAATTTTCAAA
1 CGAAATTTTCAAA
95048294 CGAAATTTTCAAA
1 CGAAATTTTCAAA
*
95048307 TGAAATTTTCAA
1 CGAAATTTTCAA
95048319 TAAATCATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.45, C:0.13, G:0.08, T:0.34
Consensus pattern (13 bp):
CGAAATTTTCAAA
Found at i:95049758 original size:15 final size:15
Alignment explanation
Indices: 95049718--95049755 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
95049708 GAAGCCCAGA
95049718 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
*
95049733 ATAAAGAAATCCATG
1 ATAAAGAAATCCAAG
95049748 AT-AAGAAA
1 ATAAAGAAA
95049756 ATCTAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 6 0.27
15 16 0.73
ACGTcount: A:0.61, C:0.11, G:0.13, T:0.16
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:95070899 original size:13 final size:13
Alignment explanation
Indices: 95070881--95070905 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
95070871 AGGCCGTGTG
95070881 AGGGACACGGGCC
1 AGGGACACGGGCC
95070894 AGGGACACGGGC
1 AGGGACACGGGC
95070906 GTGTGCTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.28, G:0.48, T:0.00
Consensus pattern (13 bp):
AGGGACACGGGCC
Found at i:95071446 original size:21 final size:21
Alignment explanation
Indices: 95071420--95071584 Score: 91
Period size: 21 Copynumber: 7.9 Consensus size: 21
95071410 AACGGAAGCA
* *
95071420 CATAAGTGCTAAACAGAAACC
1 CATAAGAGTTAAACAGAAACC
* * * * * *
95071441 CATAAGGGTTGAGCGGAAGCT
1 CATAAGAGTTAAACAGAAACC
* *
95071462 CATAAGAGCTAAACGGAAACC
1 CATAAGAGTTAAACAGAAACC
* * * *
95071483 CATAAGGGTTAAATAGAAGCT
1 CATAAGAGTTAAACAGAAACC
* *
95071504 CGTAAGAGTTGAACAGAAACC
1 CATAAGAGTTAAACAGAAACC
* *
95071525 CATCAAG-GTTAAACAGAAGCT
1 CAT-AAGAGTTAAACAGAAACC
* * *
95071546 CA-ATAGAGCTAAACAAAAACT
1 CATA-AGAGTTAAACAGAAACC
* *
95071567 CATATGAATTAAACAGAA
1 CATAAGAGTTAAACAGAA
95071585 GCTCGTGAGG
Statistics
Matches: 104, Mismatches: 36, Indels: 8
0.70 0.24 0.05
Matches are distributed among these distances:
19 1 0.01
20 2 0.02
21 97 0.93
22 4 0.04
ACGTcount: A:0.45, C:0.18, G:0.20, T:0.17
Consensus pattern (21 bp):
CATAAGAGTTAAACAGAAACC
Found at i:95071502 original size:42 final size:42
Alignment explanation
Indices: 95071414--95071606 Score: 183
Period size: 42 Copynumber: 4.6 Consensus size: 42
95071404 AGGCTGAACG
* * * * *
95071414 GAAGCACATAAGTGCTAAACAGAAACCCATAAGGGTTGAGCG
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
* *
95071456 GAAGCTCATAAGAGCTAAACGGAAACCCATAAGGGTTAAATA
1 GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
* * *
95071498 GAAGCTCGTAAGAGTTGAACAGAAACCCATCAA-GGTTAAACA
1 GAAGCTCATAAGAGCTAAACAGAAACCCAT-AAGGGTTAAACA
* * * **
95071540 GAAGCTCA-ATAGAGCTAAACAAAAACTCATATGAATTAAACA
1 GAAGCTCATA-AGAGCTAAACAGAAACCCATAAGGGTTAAACA
* * * *
95071582 GAAGCTCGTGAGGGCTAAACGGAAA
1 GAAGCTCATAAGAGCTAAACAGAAA
95071607 GTAAACACAA
Statistics
Matches: 122, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
41 2 0.02
42 118 0.97
43 2 0.02
ACGTcount: A:0.44, C:0.18, G:0.22, T:0.16
Consensus pattern (42 bp):
GAAGCTCATAAGAGCTAAACAGAAACCCATAAGGGTTAAACA
Found at i:95078184 original size:21 final size:22
Alignment explanation
Indices: 95078158--95078198 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
95078148 CACTTGACAC
95078158 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
*
95078179 AGGGGCAACACGCCCGTGTG
1 AGGGGCAACACACCCGTGTG
95078199 AGCATTCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.20, C:0.29, G:0.41, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:95081127 original size:40 final size:39
Alignment explanation
Indices: 95081072--95081180 Score: 182
Period size: 40 Copynumber: 2.7 Consensus size: 39
95081062 CGGATGATAA
95081072 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
95081112 CGAAGGCATTTGTGCGAGCTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCC
*
95081152 CGAAGGCATTTGAGCGAGTAGCTATATCC
1 CGAAGGCATTTGTGCGAGTA-CTATATCC
95081181 AGTTAAATCC
Statistics
Matches: 66, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
39 2 0.03
40 64 0.97
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
CGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCC
Found at i:95082838 original size:47 final size:48
Alignment explanation
Indices: 95082765--95082888 Score: 143
Period size: 47 Copynumber: 2.7 Consensus size: 48
95082755 AGGGTAAGAC
* *
95082765 GCCGATGCCATGTCCTAGACAC-GGTCTTACATTGACTCAT-ATCTC-AA
1 GCCGATGCCATGTCCCAGAC-CTGGTCTTACACTGACT-ATCATCTCGAA
* *
95082812 GTCGATGCCATGTCCCAGACCTGGTCTTACACTGACTATCATCTCGTA
1 GCCGATGCCATGTCCCAGACCTGGTCTTACACTGACTATCATCTCGAA
*
95082860 GCCGATG-CATGT-CCAGACAT-GTCTTACAC
1 GCCGATGCCATGTCCCAGACCTGGTCTTACAC
95082889 AAGCTTACGT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
45 9 0.13
46 10 0.15
47 42 0.62
48 7 0.10
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACCTGGTCTTACACTGACTATCATCTCGAA
Found at i:95082902 original size:45 final size:45
Alignment explanation
Indices: 95082814--95083032 Score: 144
Period size: 45 Copynumber: 4.7 Consensus size: 45
95082804 TATCTCAAGT
* *
95082814 CGATGCCATGTCCCAGACCTGGTCTTACACT-GACTATCATCTCGTA-GC
1 CGATG-CATGT-CCAGACAT-GTCTTACACTAG-CT-TCGTCTCGTAGGC
* *
95082862 CGATGCATGTCCAGACATGTCTTACACAAGCTTACGTCTCG-AGGA
1 CGATGCATGTCCAGACATGTCTTACACTAGCTT-CGTCTCGTAGGC
** * * * *
95082907 TAATGCATGTCCTAGAGATGTCTTACACTAGCCCTCGTCTC-AATGC
1 CGATGCATGTCC-AGACATGTCTTACACTAG-CTTCGTCTCGTAGGC
* * * *
95082953 CGATGCCATATCTCAGACATGGTCTTACACTGGCTCTCATAAT-GT-GGC
1 CGATG-CATGTC-CAGACAT-GTCTTACACTAGCT-TCGT-CTCGTAGGC
*
95083001 CGATGCATGTCCCGACATGTCTTACACTAGCT
1 CGATGCATGTCCAGACATGTCTTACACTAGCT
95083033 CACACACGAA
Statistics
Matches: 135, Mismatches: 24, Indels: 27
0.73 0.13 0.15
Matches are distributed among these distances:
44 2 0.01
45 41 0.30
46 41 0.30
47 23 0.17
48 27 0.20
49 1 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (45 bp):
CGATGCATGTCCAGACATGTCTTACACTAGCTTCGTCTCGTAGGC
Found at i:95088690 original size:26 final size:25
Alignment explanation
Indices: 95088597--95088716 Score: 163
Period size: 24 Copynumber: 4.8 Consensus size: 25
95088587 GAGGAAGTGC
**
95088597 AAAAGGGCTACGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
95088621 AAAAGGGCTTTGCCCCAG-TTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
95088645 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
* *
95088670 AAAAGGGCTTTTGCCCCAGTTTAACA
1 AAAAGGGC-TTTGCCCCAGTTTACCG
95088696 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
95088717 ATTAAAAGAG
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
24 39 0.44
25 14 0.16
26 35 0.40
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:95088729 original size:25 final size:24
Alignment explanation
Indices: 95088621--95088729 Score: 68
Period size: 26 Copynumber: 4.4 Consensus size: 24
95088611 CCAGTTACCG
95088621 AAAAG-GGC-TTTGCCCCAG-TTA
1 AAAAGAGGCTTTTGCCCCAGTTTA
*
95088642 CCGAAAAG-GGC-TTTGCCCTAGTTTA
1 ---AAAAGAGGCTTTTGCCCCAGTTTA
95088667 CCGAAAAG-GGCTTTTGCCCCAGTTTA
1 ---AAAAGAGGCTTTTGCCCCAGTTTA
* *
95088693 ACAAAAAGGGCTTTTGCCCCAGTTATT
1 A-AAAGA-GGCTTTTGCCCCAGTT-TA
95088720 AAAAGAGGCT
1 AAAAGAGGCT
95088730 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 5, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
23 1 0.01
24 20 0.27
25 18 0.24
26 33 0.45
27 2 0.03
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTTGCCCCAGTTTA
Found at i:95088974 original size:31 final size:31
Alignment explanation
Indices: 95088936--95089019 Score: 134
Period size: 31 Copynumber: 2.7 Consensus size: 31
95088926 TTATTACAGT
95088936 AAAGGCTTCGACCCAGTGATATGAATAATGA
1 AAAGGCTTCGACCCAGTGATATGAATAATGA
* * *
95088967 AAAGGCTTCGGCCCAATGATATGAATAATGT
1 AAAGGCTTCGACCCAGTGATATGAATAATGA
95088998 AAAGGCTTCGACCCAGT-ATATG
1 AAAGGCTTCGACCCAGTGATATG
95089020 CTGAGATTGA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 5 0.10
31 43 0.90
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGACCCAGTGATATGAATAATGA
Found at i:95094999 original size:47 final size:48
Alignment explanation
Indices: 95094927--95095196 Score: 211
Period size: 46 Copynumber: 5.8 Consensus size: 48
95094917 GGTAAGACAT
* * * *
95094927 TGATGCCATGTCCTAGACACAGTCTTACTCTGGCTCAT-ATCTC-AAGT
1 TGATGCCATGTCCCAGACA-TGTCTTACACTGGCTCATCATCTCGAAGC
* ** *
95094974 TGATGCCATGTCCCAGACCTGGTCTTACACTAACT-ATCATCTCGTAGC
1 TGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGAAGC
* * * * * *
95095022 CGATG-CATATTCCAGACATGTCTTACACTGGCTTA-CGTCTCGAGGC
1 TGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGC
*
95095068 TGATG-CATGTCCCAGACATGTCTTACACTAGCTC-TCATCTC-AATGC
1 TGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAA-GC
* * *** *
95095114 CGATGCCATGTCCCAAACATGGTCTTACACTGGCTC-TCA-CAATATGGC
1 TGATGCCATGTCCCAGACAT-GTCTTACACTGGCTCATCATCTCGA-AGC
* *
95095162 CGATG-CATGTCCCAGACATGTCTTACACTAGCTCA
1 TGATGCCATGTCCCAGACATGTCTTACACTGGCTCA
95095197 CACACGAATG
Statistics
Matches: 180, Mismatches: 32, Indels: 22
0.77 0.14 0.09
Matches are distributed among these distances:
45 1 0.01
46 76 0.42
47 72 0.40
48 31 0.17
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.29
Consensus pattern (48 bp):
TGATGCCATGTCCCAGACATGTCTTACACTGGCTCATCATCTCGAAGC
Found at i:95095174 original size:94 final size:90
Alignment explanation
Indices: 95094975--95095195 Score: 248
Period size: 94 Copynumber: 2.4 Consensus size: 90
95094965 ATCTCAAGTT
* * * * * *
95094975 GATGCCATGTCCCAGACCTGGTCTTACACTAACTATCATCTCGTAGCCGATGCATATTCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTCATAGCCGATGCATATCCCAAACA
* * *
95095040 TGTCTTACACTGGCTTACGTCTCGAGGCT
64 TGTCTTACACTGGCTTACATAT--AGGCC
*
95095069 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCA-ATGCCGATGCCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATA-GCCGATG-CATATCCCAAACA
95095133 TGGTCTTACACTGGCTCTCACA-ATATGGCC
64 T-GTCTTACACTGGCT-T-ACATATA-GGCC
95095163 GATGCATGTCCCAGACATGTCTTACACTAGCTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTC
95095196 ACACACGAAT
Statistics
Matches: 111, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
91 1 0.01
92 27 0.24
93 25 0.23
94 54 0.49
95 2 0.02
96 2 0.02
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.28
Consensus pattern (90 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCATCTCATAGCCGATGCATATCCCAAACATG
TCTTACACTGGCTTACATATAGGCC
Found at i:95101071 original size:17 final size:17
Alignment explanation
Indices: 95101049--95101085 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
95101039 CAAGTCGTGT
95101049 GACTCACACAGCCAAAA
1 GACTCACACAGCCAAAA
95101066 GACTCACACAGCCAAAA
1 GACTCACACAGCCAAAA
95101083 GAC
1 GAC
95101086 GCACCAGTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.46, C:0.35, G:0.14, T:0.05
Consensus pattern (17 bp):
GACTCACACAGCCAAAA
Found at i:95103725 original size:43 final size:43
Alignment explanation
Indices: 95103567--95103725 Score: 117
Period size: 43 Copynumber: 3.7 Consensus size: 43
95103557 TATGTGTTTT
* ** * *
95103567 CGTGTAAGACCACGTCTAGGATGTTGGCATCGAT-TTGAGATTTG
1 CGTGTAAGACCATGTCTAGGACATCGGCATCGATATTG-GA-TTA
* * * * * * * *
95103611 CGTGTAAGACCATTTTTGGGACATCAGTATTG-TATTTGATTT
1 CGTGTAAGACCATGTCTAGGACATCGGCATCGATATTGGATTA
* *
95103653 CGTGTAAGACCCTGTC-AGGGACAGCGGCATCGATATTGGATTA
1 CGTGTAAGACCATGTCTA-GGACATCGGCATCGATATTGGATTA
* *
95103696 CATGTAAGACCATGTCTAGGACATTGGCAT
1 CGTGTAAGACCATGTCTAGGACATCGGCAT
95103726 TGTACGAGTT
Statistics
Matches: 85, Mismatches: 26, Indels: 9
0.71 0.22 0.08
Matches are distributed among these distances:
42 25 0.29
43 35 0.41
44 25 0.29
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTAGGACATCGGCATCGATATTGGATTA
Found at i:95105409 original size:73 final size:73
Alignment explanation
Indices: 95105293--95105460 Score: 293
Period size: 73 Copynumber: 2.3 Consensus size: 73
95105283 GTAGCTCTAA
* *
95105293 AGAGCCATTAATTAGGAAGCTTCGGATAGCTTTATGTCAGGAAATTCAAGCAAGCTATATCGGGA
1 AGAGCCATTAATCAGGAAGCTCCGGATAGCTTTATGTCAGGAAATTCAAGCAAGCTATATCGGGA
95105358 AGCTCTGG
66 AGCTCTGG
*
95105366 AGAGCCATTAATCAGGAAGCTCCGGATAG-TCTTATGTCGGGAAATTCAAGCAAGCTATATCGGG
1 AGAGCCATTAATCAGGAAGCTCCGGATAGCT-TTATGTCAGGAAATTCAAGCAAGCTATATCGGG
95105430 AAGCTCTGG
65 AAGCTCTGG
95105439 AGAGCCATTAATCAGGAAGCTC
1 AGAGCCATTAATCAGGAAGCTC
95105461 ATAAAGAGCC
Statistics
Matches: 91, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
72 1 0.01
73 90 0.99
ACGTcount: A:0.32, C:0.18, G:0.26, T:0.24
Consensus pattern (73 bp):
AGAGCCATTAATCAGGAAGCTCCGGATAGCTTTATGTCAGGAAATTCAAGCAAGCTATATCGGGA
AGCTCTGG
Found at i:95105496 original size:26 final size:25
Alignment explanation
Indices: 95105424--95105498 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 25
95105414 AGCAAGCTAT
* * *
95105424 ATCGGGAAGCTCTGGAGAGCCATTA
1 ATCGGGAAGCTCAGAAAAGCCATTA
* * *
95105449 ATCAGGAAGCTCATAAAGAGCCTTTA
1 ATCGGGAAGCTCAGAAA-AGCCATTA
95105475 ATCGGGAAGCTCACGAAAAGCCAT
1 ATCGGGAAGCTCA-GAAAAGCCAT
95105499 ATATTGGGAC
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
25 12 0.31
26 24 0.62
27 3 0.08
ACGTcount: A:0.35, C:0.21, G:0.25, T:0.19
Consensus pattern (25 bp):
ATCGGGAAGCTCAGAAAAGCCATTA
Found at i:95105652 original size:25 final size:25
Alignment explanation
Indices: 95105572--95105657 Score: 63
Period size: 25 Copynumber: 3.5 Consensus size: 25
95105562 AATGCTCTGA
* *
95105572 AGAGCTAT-TAACGGGAAACTC-ACA
1 AGAGCTATATAACGGGAAGCTCGA-G
* *
95105596 AGAACCATATAACGGGAAGCTCGAG
1 AGAGCTATATAACGGGAAGCTCGAG
* * *
95105621 AGGGCTATATATCGGGATGCTC-ATG
1 AGAGCTATATAACGGGAAGCTCGA-G
95105646 AGAGCTA-ATAAC
1 AGAGCTATATAAC
95105658 AGGACGTTCT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
24 11 0.23
25 36 0.75
26 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.26, T:0.19
Consensus pattern (25 bp):
AGAGCTATATAACGGGAAGCTCGAG
Found at i:95119246 original size:26 final size:27
Alignment explanation
Indices: 95119217--95119304 Score: 81
Period size: 27 Copynumber: 3.3 Consensus size: 27
95119207 CAAAACAGTT
* * *
95119217 ATTTTACCCTAC-AGGGTATGTCGGTC
1 ATTTTACACTACAAGGGTATGTCGATA
*
95119243 ATTTTACACTACAAGGGTATTTCGATA
1 ATTTTACACTACAAGGGTATGTCGATA
* * * *
95119270 ATTTTACA-AATCGAGGGTATTTCGGTA
1 ATTTTACACTA-CAAGGGTATGTCGATA
95119297 ATTTTACA
1 ATTTTACA
95119305 AATTGAGGGT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
26 12 0.23
27 41 0.77
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (27 bp):
ATTTTACACTACAAGGGTATGTCGATA
Found at i:95119273 original size:27 final size:26
Alignment explanation
Indices: 95119229--95119620 Score: 217
Period size: 27 Copynumber: 14.7 Consensus size: 26
95119219 TTTACCCTAC
* * * *
95119229 AGGGTATGTCGGTCATTTTACACTACA
1 AGGGTATTTCGATAATTTTACA-TACG
*
95119256 AGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* * *
95119283 AGGGTATTTCGGTAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACATA-CG
* *
95119310 AGGGTGTTTCGATAATTTCATAAAT-CG
1 AGGGTATTTCGATAATTT--TACATACG
* * *
95119337 GGGGTATTT-TAGTAATTTTACAAATCG
1 AGGGTATTTCGA-TAATTTTACATA-CG
*
95119364 AGAGTATTTCGATAATTTTACA-ATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* * *
95119390 AGGGTATTTCAATAATTTTACAAATTG
1 AGGGTATTTCGATAATTTTACATA-CG
* *
95119417 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* *
95119444 AGGGTATTTTGATAATTTCACA-ATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* * * *
95119470 AAGGTACTTC-AGTAATTTCACA-ATCT
1 AGGGTATTTCGA-TAATTTTACATA-CG
* *
95119496 AGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* * * *
95119523 AGGGTATTT-TAGTAACTTCACA-ATTG
1 AGGGTATTTCGA-TAATTTTACATA-CG
* * *
95119549 AGGGTATTTCGGTAACTTTACAAATCG
1 AGGGTATTTCGATAATTTTACATA-CG
* * *
95119576 GGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGATAATTTTACATA-CG
95119603 AGGGTATTTC-AGTAATTT
1 AGGGTATTTCGA-TAATTT
95119621 CTCTTTATTA
Statistics
Matches: 299, Mismatches: 51, Indels: 30
0.79 0.13 0.08
Matches are distributed among these distances:
25 4 0.01
26 88 0.29
27 203 0.68
28 1 0.00
29 3 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (26 bp):
AGGGTATTTCGATAATTTTACATACG
Found at i:95119412 original size:53 final size:53
Alignment explanation
Indices: 95119229--95119620 Score: 416
Period size: 53 Copynumber: 7.3 Consensus size: 53
95119219 TTTACCCTAC
* * * *
95119229 AGGGTATGTCGGTCATTTTAC-ACTACAAGGGTATTTCGATAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAAT-CGAGGGTATTTCGATAATTTTAC-AATCG
* *
95119283 AGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCGATAATTTCATA-AATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTT--TACAATCG
* ** *
95119337 GGGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCGATAATTTTACAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCG
** * *
95119390 AGGGTATTTCAATAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTAC-AATCG
* * * * * * *
95119444 AGGGTATTTTGATAATTTCAC-AATCGAAGGTACTTC-AGTAATTTCACAATCT
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCG
* * * *
95119496 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT-TAGTAACTTCACAATTG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTTACAATCG
* * *
95119549 AGGGTATTTCGGTAACTTTACAAATCGGGGGTATTTCGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTAC-AATCG
*
95119603 AGGGTATTTCAGTAATTT
1 AGGGTATTTCGGTAATTT
95119621 CTCTTTATTA
Statistics
Matches: 284, Mismatches: 44, Indels: 20
0.82 0.13 0.06
Matches are distributed among these distances:
52 24 0.08
53 133 0.47
54 123 0.43
55 2 0.01
56 2 0.01
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTTACAATCG
Found at i:95119442 original size:80 final size:80
Alignment explanation
Indices: 95119256--95119621 Score: 443
Period size: 80 Copynumber: 4.6 Consensus size: 80
95119246 TTACACTACA
* * * * * *
95119256 AGGGTATTTCGATAATTTTACAAATCGAGGGTATTTCGGTAATTTTACAAATTGAGGGTGTTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCAC-AATCGAGGGTATTTCA
*
95119321 ATAATTTCATAAATCG
65 ATAATTTCACAAATCG
* ** * *
95119337 GGGGTATTTTAGTAATTTTACAAATCGAGAGTATTTCGATAATTTTACAATCGAGGGTATTTCAA
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAATCGAGGGTATTTCAA
* *
95119402 TAATTTTACAAATTG
66 TAATTTCACAAATCG
* * * *
95119417 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTTGATAATTTCACAATCGAAGGTACTTCAG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAATCGAGGGTATTTCAA
*
95119482 TAATTTCAC-AATCT
66 TAATTTCACAAATCG
* * * *
95119496 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTT-TAGTAACTTCACAATTGAGGGTATTTCG
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTCACAATCGAGGGTATTTCA
*
95119560 GTAACTTT-ACAAATCG
65 ATAA-TTTCACAAATCG
*
95119576 GGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTC-AGTAATTTC
1 AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGA-TAATTTC
95119622 TCTTTATTAT
Statistics
Matches: 248, Mismatches: 33, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
78 1 0.00
79 65 0.26
80 140 0.56
81 42 0.17
ACGTcount: A:0.31, C:0.11, G:0.20, T:0.38
Consensus pattern (80 bp):
AGGGTATTTCGGTAATTTTACAAATCGAGGGTATTTCGATAATTTCACAATCGAGGGTATTTCAA
TAATTTCACAAATCG
Found at i:95132076 original size:25 final size:25
Alignment explanation
Indices: 95132046--95132174 Score: 63
Period size: 25 Copynumber: 5.2 Consensus size: 25
95132036 AATAACGAGT
95132046 AGCTCTTAAGAGCCATTAATCAGAA
1 AGCTCTTAAGAGCCATTAATCAGAA
* * *
95132071 AGCTCTAAATAGCC-TTATATCGGGAA
1 AGCTCTTAAGAGCCATTA-ATC-AGAA
* * *
95132097 A--T-TCAAGCAAGCCA-T-ATCGGGA
1 AGCTCTTAAG--AGCCATTAATCAGAA
**
95132119 AGCTCTGGAGAGCCATTAATCAGAA
1 AGCTCTTAAGAGCCATTAATCAGAA
* * * *
95132144 AGCTCATAATGAGCCTTTAGTCAGGA
1 AGCTCTTAA-GAGCCATTAATCAGAA
95132170 AGCTC
1 AGCTC
95132175 ACGAAGAGCC
Statistics
Matches: 77, Mismatches: 16, Indels: 21
0.68 0.14 0.18
Matches are distributed among these distances:
22 4 0.05
23 11 0.14
24 6 0.08
25 34 0.44
26 22 0.29
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (25 bp):
AGCTCTTAAGAGCCATTAATCAGAA
Found at i:95132183 original size:26 final size:25
Alignment explanation
Indices: 95132118--95132186 Score: 66
Period size: 26 Copynumber: 2.7 Consensus size: 25
95132108 CCATATCGGG
* *
95132118 AAGCTCTGGAGAGCCATTAATCAGA
1 AAGCTCAGAAGAGCCATTAATCAGA
* * * *
95132143 AAGCTCATAATGAGCCTTTAGTCAGG
1 AAGCTCAGAA-GAGCCATTAATCAGA
95132169 AAGCTCACGAAGAGCCAT
1 AAGCTCA-GAAGAGCCAT
95132187 ATATTGGGAC
Statistics
Matches: 34, Mismatches: 8, Indels: 3
0.76 0.18 0.07
Matches are distributed among these distances:
25 7 0.21
26 25 0.74
27 2 0.06
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.20
Consensus pattern (25 bp):
AAGCTCAGAAGAGCCATTAATCAGA
Found at i:95132340 original size:25 final size:25
Alignment explanation
Indices: 95132290--95132340 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
95132280 TACAAGAACC
*
95132290 ATATAACGGGAAGCTCGAGAGGGCT
1 ATATAACGGGAAGCTCGAGAGAGCT
* *
95132315 ATATATCGGGATGCTC-ATGAGAGCT
1 ATATAACGGGAAGCTCGA-GAGAGCT
95132340 A
1 A
95132341 ATAGCAGGAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.05
25 21 0.95
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (25 bp):
ATATAACGGGAAGCTCGAGAGAGCT
Found at i:95141063 original size:40 final size:40
Alignment explanation
Indices: 95141000--95141247 Score: 155
Period size: 40 Copynumber: 6.0 Consensus size: 40
95140990 TCGGATGATA
*
95141000 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCTAGTGGCTAAT
* * * *
95141040 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCT-ACT-AT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGGCTAAT
* * * *
95141079 ATCCGAGCTAAGTCCCGAAGGCCTTTGTGCGGGCATTTGTGCGAGTTATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGT----GC--TAGT--G-GCTA--AT
* * ** *
95141131 ACCGGGCTATGTCCCGAAGGCATTTGTGCGAGT-TATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAAT
* * **
95141170 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACT-AT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAAT
*
95141209 AACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTA
1 -ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTA
95141248 TATCTGGCTA
Statistics
Matches: 158, Mismatches: 31, Indels: 37
0.70 0.14 0.16
Matches are distributed among these distances:
39 36 0.23
40 83 0.53
41 4 0.03
44 2 0.01
45 3 0.02
46 1 0.01
47 2 0.01
49 1 0.01
51 23 0.15
52 3 0.02
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (40 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGGCTAAT
Found at i:95141157 original size:51 final size:52
Alignment explanation
Indices: 95141058--95141160 Score: 145
Period size: 51 Copynumber: 2.0 Consensus size: 52
95141048 AAGTCCCGAA
*
95141058 GGCATTCGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCCTTTGTGCG
1 GGCATTCGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCG
* * * * *
95141110 GGCATTTGTGCGAGTTATTATA-CCGGGCTATGTCCCGAAGGCATTTGTGCG
1 GGCATTCGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCG
95141161 AGTTATTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
51 26 0.58
52 19 0.42
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.28
Consensus pattern (52 bp):
GGCATTCGTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCATTTGTGCG
Found at i:95141164 original size:39 final size:39
Alignment explanation
Indices: 95141110--95141235 Score: 207
Period size: 39 Copynumber: 3.2 Consensus size: 39
95141100 CCTTTGTGCG
*
95141110 GGCATTTGTGCGAGTTATTATACCGGGCTATGTCCCGAA
1 GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
95141149 GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
* * *
95141188 GGAATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAA
1 GGCATTTGTGCGAGTTATTAT-ACCGGGCTAAGTCCCGAA
95141228 GGCATTTG
1 GGCATTTG
95141236 AGCTAGTGGC
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 56 0.69
40 25 0.31
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.29
Consensus pattern (39 bp):
GGCATTTGTGCGAGTTATTATACCGGGCTAAGTCCCGAA
Found at i:95141257 original size:79 final size:78
Alignment explanation
Indices: 95141113--95141258 Score: 193
Period size: 79 Copynumber: 1.9 Consensus size: 78
95141103 TTGTGCGGGC
* * * * * *
95141113 ATTTGTGCGAGTTATTATACCGGGCTATGTCCCGAAGGCATTTGTGCGAGTTATTATACCGGGCT
1 ATTTGTGCAAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGGGCT
95141178 AAGTCCCGAAGGA
66 AAGTCCCGAAGGA
* * * *
95141191 ATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCTGGC
1 ATTTGTGCAAGTTACTAT-ACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGGGC
95141256 TAA
65 TAA
95141259 ACTCCGAAGG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
78 16 0.28
79 41 0.72
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (78 bp):
ATTTGTGCAAGTTACTATACCGGGCTAAGTCCCGAAGGCATTTGAGCGAGTGACTATACCGGGCT
AAGTCCCGAAGGA
Found at i:95149144 original size:40 final size:39
Alignment explanation
Indices: 95149082--95149266 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 39
95149072 CGGATGATAA
* *
95149082 CCGGGCTAAGTCCCG-AGAGCATTTGTGCTAGTGGCTAATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-ACTAATT
*
95149122 CCGAGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
*
95149162 CTGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTACTAATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAATT
* *
95149202 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTAAT-T
95149242 CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
95149267 AGCTAGTGTC
Statistics
Matches: 133, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 2 0.02
40 128 0.96
41 3 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTAATT
Found at i:95155491 original size:8 final size:8
Alignment explanation
Indices: 95155478--95155509 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
95155468 CTAGATCGGC
95155478 AAAAGCCG
1 AAAAGCCG
95155486 AAAAGCCG
1 AAAAGCCG
*
95155494 AAATGCCG
1 AAAAGCCG
95155502 AAAAGCCG
1 AAAAGCCG
95155510 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:95155796 original size:28 final size:28
Alignment explanation
Indices: 95155756--95155819 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
95155746 TGTACTAGAG
*
95155756 TACCCCTATGTATGCAAAATTACCATTA
1 TACCCCTATGTATGCAAAATGACCATTA
* *
95155784 TACCCCTATGTATGCTAAATGACCTTTA
1 TACCCCTATGTATGCAAAATGACCATTA
95155812 TACCCCTA
1 TACCCCTA
95155820 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.08, T:0.33
Consensus pattern (28 bp):
TACCCCTATGTATGCAAAATGACCATTA
Found at i:95155983 original size:27 final size:27
Alignment explanation
Indices: 95155925--95156014 Score: 119
Period size: 28 Copynumber: 3.2 Consensus size: 27
95155915 AGGAAGCGTC
95155925 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* *
95155953 CTGGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
95155980 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
95156009 CTGGTG
1 CTGGTG
95156015 ACTCTGTCAC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 23 0.42
28 25 0.45
29 7 0.13
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:95156033 original size:55 final size:56
Alignment explanation
Indices: 95155925--95156039 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
95155915 AGGAAGCGTC
* *
95155925 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACATATATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
* * *
95155980 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCACAT-TTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACATATATCTGTAT
95156036 CTGG
1 CTGG
95156040 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACATATATCTGTAT
Found at i:95156502 original size:19 final size:19
Alignment explanation
Indices: 95156478--95156516 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
95156468 TTTTAATTAT
* *
95156478 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
95156497 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
95156516 T
1 T
95156517 ATGATGGAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:95159881 original size:40 final size:40
Alignment explanation
Indices: 95159799--95160058 Score: 298
Period size: 40 Copynumber: 6.5 Consensus size: 40
95159789 ACCCAAGTAT
* * * *
95159799 CTTCGGGATTTAG-CCGGATATAG-CACTCGCA-CAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* *
95159836 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
*
95159876 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCAT-AAATGC
* * *
95159917 CTTCGGGACTTAG-TCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
* * * *
95159956 CTTCGGGTCTTAGCCCGAATATAG-CAACTTGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTC-ACTAGCATAAATGC
* *
95159996 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCACTAGCATAAATGC
95160036 CTTCGGGACTTAGCCCCGGATAT
1 CTTCGGGACTTAG-CCCGGATAT
95160059 CATTCGAATA
Statistics
Matches: 188, Mismatches: 25, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
37 11 0.06
38 9 0.05
39 27 0.14
40 111 0.59
41 30 0.16
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATGC
Found at i:95160014 original size:120 final size:117
Alignment explanation
Indices: 95159799--95160050 Score: 355
Period size: 120 Copynumber: 2.1 Consensus size: 117
95159789 ACCCAAGTAT
* * * *
95159799 CTTCGGGATTTAGCCGGATATAGCACTCGCACAAGGCCTTCGGGTCTTAGCCCGGATATGGTCAC
1 CTTCGGGACTTAGCCGGATATAGCACTAGCACAAGGCCTTCGGGTCTTAGCCCGAATATAGTCAC
*
95159864 TAGCATAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGGC
66 TAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAA-GC
* * *
95159917 CTTCGGGACTTAGTCGGATATAGTCGCTAGCACAAATGCCTTCGGGTCTTAGCCCGAATATAG-C
1 CTTCGGGACTTAGCCGGATATAG-CACTAGCAC-AAGGCCTTCGGGTCTTAGCCCGAATATAGTC
* *
95159981 AACTTGCACAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
64 -ACTAGCACAAATGCCTTCGGGA-CTTAGCCCGGATATAGTCACTAGCATAAAAGC
95160036 CTTCGGGACTTAGCC
1 CTTCGGGACTTAGCC
95160051 CCGGATATCA
Statistics
Matches: 119, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
118 21 0.18
119 27 0.23
120 71 0.60
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (117 bp):
CTTCGGGACTTAGCCGGATATAGCACTAGCACAAGGCCTTCGGGTCTTAGCCCGAATATAGTCAC
TAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAAAGC
Found at i:95167992 original size:38 final size:37
Alignment explanation
Indices: 95167880--95168089 Score: 196
Period size: 40 Copynumber: 5.5 Consensus size: 37
95167870 ACCCAAGTAT
* * * *
95167880 CTTCGAGATTTAGCCGGATATAGCCACTCGCAC-AGGC
1 CTTCG-GACTTAGCCGGATATAGTCACTAGCACAATGC
* * *
95167917 CTTCGGTCTTAGCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGACTTAGCCGGATATAGTCACTAGCA-CAATGC
95167955 CTTCGGGACTTAGCCCGGATATAGTC-CTAGCACAATGC
1 CTTC-GGACTTAG-CCGGATATAGTCACTAGCACAATGC
* *
95167993 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTC-GGACTTAG-CCGGATATAGTC-ACTAGCAC-AATGC
* *
95168033 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAGC
1 CTTCGGA-CTTAG-CCGGATATAGTCACTAGCACAATGC
95168072 C-T-GGACTTAGCCGGATAT
1 CTTCGGACTTAGCCGGATAT
95168090 CATTCGAATA
Statistics
Matches: 147, Mismatches: 17, Indels: 20
0.80 0.09 0.11
Matches are distributed among these distances:
35 8 0.05
36 26 0.18
37 9 0.06
38 36 0.24
39 26 0.18
40 41 0.28
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (37 bp):
CTTCGGACTTAGCCGGATATAGTCACTAGCACAATGC
Found at i:95168036 original size:78 final size:75
Alignment explanation
Indices: 95167880--95168065 Score: 216
Period size: 78 Copynumber: 2.4 Consensus size: 75
95167870 ACCCAAGTAT
* * * * *
95167880 CTTCGAGATTTAGCCGGATATAGCCACTCGCACAGGCCTTCGGTCTTAGCCGGATATGGTCACTA
1 CTTCGGGACTTAGCCGGATATAGTCACTAGCACAGGCCTTCGGTCTTAGCCGGATATAGTCACTA
*
95167945 GCATAAATGC
66 GCACAAATGC
*
95167955 CTTCGGGACTTAGCCCGGATATAGTC-CTAGCACAATGCCTTCGGGTCTTAGCCCGGATATAG-C
1 CTTCGGGACTTAG-CCGGATATAGTCACTAGCAC-AGGCCTTC-GGTCTTAG-CCGGATATAGTC
*
95168018 AACTCGCACAAATGC
62 -ACTAGCACAAATGC
95168033 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCA
1 CTTCGGGA-CTTAG-CCGGATATAGTCACTAGCA
95168066 TAAAGCCTGG
Statistics
Matches: 95, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
75 17 0.18
76 18 0.19
77 12 0.13
78 42 0.44
79 6 0.06
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (75 bp):
CTTCGGGACTTAGCCGGATATAGTCACTAGCACAGGCCTTCGGTCTTAGCCGGATATAGTCACTA
GCACAAATGC
Found at i:95181817 original size:27 final size:27
Alignment explanation
Indices: 95181787--95181964 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 27
95181777 ATATTGAGTC
* *
95181787 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
95181814 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
95181841 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
95181869 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* ***
95181896 CGCACACTTAGTGC-ATCATATTCGTTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
95181923 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
95181950 CACACACTTAGTGCT
1 CGCACACTTAGTGCT
95181965 GTACAATTTA
Statistics
Matches: 126, Mismatches: 22, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:95189053 original size:40 final size:38
Alignment explanation
Indices: 95188990--95189219 Score: 203
Period size: 40 Copynumber: 5.7 Consensus size: 38
95188980 TCGGATGATA
* *
95188990 ACCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGTCTAAT
1 ACCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-TCT-AT
* * *
95189030 TCCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TTCTAT
* * *
95189069 ATCCGAGCTAAGTCCCGAAGGCCTTTGTGCGGCATTTGCGATATTAT
1 A-CCGGGCTAAGTCCCGAAGGCATTTGTGC-G-AGTT-C-----TAT
*
95189116 ACCGGGCT-AGTCCCGAAGGCATTTGTGCGAGTTATTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-CTAT
* *
95189154 ACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTAT
1 ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTT-CTAT
95189193 AACCGGGCTAAGTCCCGAAGGCATTTG
1 -ACCGGGCTAAGTCCCGAAGGCATTTG
95189220 AGCTAGTGGC
Statistics
Matches: 157, Mismatches: 20, Indels: 26
0.77 0.10 0.13
Matches are distributed among these distances:
38 11 0.07
39 29 0.18
40 77 0.49
41 5 0.03
42 2 0.01
43 3 0.02
44 1 0.01
45 19 0.12
46 6 0.04
47 4 0.03
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (38 bp):
ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCTAT
Found at i:95189179 original size:39 final size:39
Alignment explanation
Indices: 95189110--95189219 Score: 177
Period size: 39 Copynumber: 2.8 Consensus size: 39
95189100 GCATTTGCGA
*
95189110 TATTATACCGGGCT-AGTCCCGAAGGCATTTGTGCGAGT
1 TATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
*
95189148 TATTATACCGGGCTAAGTCCCGAAGGAATTTGTGCAAGT
1 TATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
*
95189187 TACTATAACCGGGCTAAGTCCCGAAGGCATTTG
1 TATTAT-ACCGGGCTAAGTCCCGAAGGCATTTG
95189220 AGCTAGTGGC
Statistics
Matches: 66, Mismatches: 4, Indels: 2
0.92 0.06 0.03
Matches are distributed among these distances:
38 14 0.21
39 27 0.41
40 25 0.38
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (39 bp):
TATTATACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGT
Found at i:95189191 original size:124 final size:126
Alignment explanation
Indices: 95188990--95189219 Score: 322
Period size: 124 Copynumber: 1.8 Consensus size: 126
95188980 TCGGATGATA
* * * *
95188990 ACCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGTCTAATTCCGGGCTAAGTCCCGAAGGCATTC
1 ACCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGTATAATACCGGGCTAAGTCCCGAAGGAATTC
* * *
95189055 GTGCGAGCTACTATATCCGAGCTAAGTCCCGAAGGCCTTTGTGCGGCATTTGCGATATTAT
66 GTGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGGCATTTGCGATATTAT
* *
95189116 ACCGGGCT-AGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGAATT
1 ACCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGTATAATACCGGGCTAAGTCCCGAAGGAATT
* * *
95189178 TGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 CGTGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTG
95189220 AGCTAGTGGC
Statistics
Matches: 91, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
124 63 0.69
125 20 0.22
126 8 0.09
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (126 bp):
ACCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGTATAATACCGGGCTAAGTCCCGAAGGAATTC
GTGCAAGCTACTATAACCGAGCTAAGTCCCGAAGGCATTTGTGCGGCATTTGCGATATTAT
Found at i:95197069 original size:40 final size:40
Alignment explanation
Indices: 95197007--95197205 Score: 136
Period size: 40 Copynumber: 4.7 Consensus size: 40
95196997 CGGATGATAA
* *
95197007 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAG-TGGCTA-ATT
1 CCGGGCTAAGTCCCGAAG-GCATTTGAGCGAGCT-ACTATA-T
* *
95197047 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
* *
95197087 CCGGGCTAAGTCCCGAAGGCATTTGTGCGGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGCA-TT-T----G-A-----GCGAGCTACTATAT
* * * * *
95197139 -CGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
95197178 CCGGGCTAAGTCCCGAAGGCATTTGAGC
1 CCGGGCTAAGTCCCGAAGGCATTTGAGC
95197206 TAGTGGCTAT
Statistics
Matches: 128, Mismatches: 15, Indels: 32
0.73 0.09 0.18
Matches are distributed among these distances:
39 11 0.09
40 75 0.59
41 6 0.05
45 1 0.01
46 1 0.01
49 1 0.01
50 2 0.02
51 19 0.15
52 12 0.09
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCGAGCTACTATAT
Found at i:95197162 original size:51 final size:52
Alignment explanation
Indices: 95197064--95197165 Score: 161
Period size: 51 Copynumber: 2.0 Consensus size: 52
95197054 AAGTCCCGAA
*
95197064 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCG
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTGCG
* * *
95197116 GGCATTTGTGCGAGTTATTATAT-CGGGCTAAGTCCCGAAGGAATTTGTGC
1 GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTGC
95197166 AAGTTACTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
51 26 0.57
52 20 0.43
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (52 bp):
GGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGAATTTGTGCG
Found at i:95197216 original size:40 final size:40
Alignment explanation
Indices: 95197139--95197216 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
95197129 GTTATTATAT
* *
95197139 CGGGCTAAGTCCCGAAGGAATTTGTGCAAGTTACTATAAC
1 CGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATAAC
* * *
95197179 CGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATA
1 CGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATA
95197217 TCTGGCTAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.24
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGAATTTGAGCAAGTGACTATAAC
Found at i:95197566 original size:18 final size:19
Alignment explanation
Indices: 95197521--95197558 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
95197511 TTCATGGCTC
95197521 AAACTTACTAAGCATTAAA
1 AAACTTACTAAGCATTAAA
95197540 AAACTTACTAAGCATTAAA
1 AAACTTACTAAGCATTAAA
95197559 TGCTTACTCC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (19 bp):
AAACTTACTAAGCATTAAA
Found at i:95204090 original size:25 final size:24
Alignment explanation
Indices: 95204062--95204113 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
95204052 TAAATATCGG
*
95204062 TAAGCTCATATA-AGCTGAGTATTGA
1 TAAGCTCATA-AGAGCTG-GAATTGA
*
95204087 TAAGGTCATAAGAGCTGGAATTGA
1 TAAGCTCATAAGAGCTGGAATTGA
95204111 TAA
1 TAA
95204114 CCCTAATGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 10 0.42
25 14 0.58
ACGTcount: A:0.38, C:0.10, G:0.23, T:0.29
Consensus pattern (24 bp):
TAAGCTCATAAGAGCTGGAATTGA
Found at i:95211199 original size:28 final size:28
Alignment explanation
Indices: 95211124--95211206 Score: 121
Period size: 28 Copynumber: 3.0 Consensus size: 28
95211114 GCTATGTACA
*
95211124 GCACTTAGTGTGCGAGACATCGAGTATG
1 GCACTTAGTGTGCGAGATATCGAGTATG
*
95211152 GCACTTAATGTGCGAGATATCGAGTATG
1 GCACTTAGTGTGCGAGATATCGAGTATG
* * *
95211180 GCACTTAGTGTGCAAAATATTGAGTAT
1 GCACTTAGTGTGCGAGATATCGAGTAT
95211207 TCAACGGCAT
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
GCACTTAGTGTGCGAGATATCGAGTATG
Found at i:95223191 original size:32 final size:33
Alignment explanation
Indices: 95223149--95223212 Score: 80
Period size: 32 Copynumber: 2.0 Consensus size: 33
95223139 GGAAGAAGAA
95223149 AGAAAGAATAA-GAAAAAGTAGAAA-AAAATAAAG
1 AGAAAGAATAATGAAAAA-TA-AAATAAAATAAAG
*
95223182 AGAAA-AATAATGTAAAATAAAATAAAATAAA
1 AGAAAGAATAATGAAAAATAAAATAAAATAAA
95223213 ATAATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
31 3 0.11
32 15 0.54
33 10 0.36
ACGTcount: A:0.73, C:0.00, G:0.12, T:0.14
Consensus pattern (33 bp):
AGAAAGAATAATGAAAAATAAAATAAAATAAAG
Found at i:95224311 original size:15 final size:16
Alignment explanation
Indices: 95224271--95224312 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
95224261 AAATTTAAAC
*
95224271 ATTTTATTGAAATAAT
1 ATTTTATTAAAATAAT
*
95224287 ATTTTAATTAAAATCAT
1 ATTTT-ATTAAAATAAT
95224304 -TTTTATTAA
1 ATTTTATTAA
95224313 TAAATTATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 5 0.22
16 9 0.39
17 9 0.39
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:95230955 original size:27 final size:28
Alignment explanation
Indices: 95230908--95230962 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
95230898 CATTTTTTCA
95230908 TCAATTCATATACATGTATATAA-ATAT
1 TCAATTCATATACATGTATATAACATAT
95230935 TCAATATCATATA-AT-TCATATAACATAT
1 TCAAT-TCATATACATGT-ATATAACATAT
95230963 CATATATAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
26 1 0.04
27 13 0.52
28 11 0.44
ACGTcount: A:0.45, C:0.13, G:0.02, T:0.40
Consensus pattern (28 bp):
TCAATTCATATACATGTATATAACATAT
Found at i:95230982 original size:21 final size:20
Alignment explanation
Indices: 95230924--95230982 Score: 57
Period size: 21 Copynumber: 2.9 Consensus size: 20
95230914 CATATACATG
95230924 TATATAAATAT-TCAATATCA
1 TATATAAATATATC-ATATCA
** *
95230944 TATAATTCATATAACATATCA
1 TAT-ATAAATATATCATATCA
95230965 TATATAAATAATATCATA
1 TATATAAAT-ATATCATA
95230983 ATATTTTATA
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
20 7 0.23
21 22 0.73
22 1 0.03
ACGTcount: A:0.51, C:0.10, G:0.00, T:0.39
Consensus pattern (20 bp):
TATATAAATATATCATATCA
Found at i:95234656 original size:16 final size:16
Alignment explanation
Indices: 95234615--95234667 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
95234605 TATTTATTTA
95234615 AATATTAA-ATT-ATT
1 AATATTAATATTAATT
*
95234629 ACTA-TAATTATTAATT
1 AATATTAA-TATTAATT
95234645 AATATTAATATTATATT
1 AATATTAATATTA-ATT
95234662 -ATATTA
1 AATATTA
95234668 TGAAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 3 0.09
14 3 0.09
15 3 0.09
16 17 0.53
17 6 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (16 bp):
AATATTAATATTAATT
Found at i:95236704 original size:47 final size:47
Alignment explanation
Indices: 95236640--95236735 Score: 147
Period size: 47 Copynumber: 2.0 Consensus size: 47
95236630 CTGTTATCGT
* * * *
95236640 TACTGTTACTGTTCCGGATTTGTTCCGATGAGGTACTTTGTGTACCG
1 TACTATTACCGTTCCGGATTTGTTCCGAAGAGGTACTTTATGTACCG
*
95236687 TACTATTACCGTTCCGGATTTGTTCTGAAGAGGTACTTTATGTACCG
1 TACTATTACCGTTCCGGATTTGTTCCGAAGAGGTACTTTATGTACCG
95236734 TA
1 TA
95236736 TTGCTACTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.40
Consensus pattern (47 bp):
TACTATTACCGTTCCGGATTTGTTCCGAAGAGGTACTTTATGTACCG
Done.